Installation

You need to have a installed and running docker environment and be a member of the docker group.

1. Get this repo

git clone https://github.com/meier-rene/MSConvertGUI-docker
cd MSConvertGUI-docker

2. Create the container image

docker build --rm -t msconvertgui .

3. Allow local X11 connections from root

xhost +local:root

4. Run the container

docker run --rm -v /tmp/.X11-unix:/tmp/.X11-unix:rw -v $HOME:/data:rw msconvertgui

Substitute $HOME with the directory holding your data. The directory is mounted at /data in your container, which is accessible as Z:\data in MSConvertGUI.

Testing commandline msconvert.exe (which fails on Thermo RAW data)

This container can be used in a similar way to test the msconvert.exe program. A suitable command would be

docker run --rm -v /tmp/.X11-unix:/tmp/.X11-unix:rw -v $HOME:/data:rw \
  msconvertgui /bin/bash -c "cd /data; wine msconvert small.RAW"

if your data file small.RAW is directly in the exposed folder.

Another option is of course to enter a interactive shell with

docker run -ti -v /tmp/.X11-unix:/tmp/.X11-unix:rw -v $HOME::/data:rw \
  msconvertgui /bin/bash

and issue a wine msconvert <data_file> manually.